|
| Status |
Public on Jan 12, 2024 |
| Title |
Bladder cancer tissue 42 |
| Sample type |
genomic |
| |
|
| Source name |
bladder cancer tissue
|
| Organism |
Homo sapiens |
| Characteristics |
ttumor stage: ta
gender: f
age/y: 76
|
| Extracted molecule |
genomic DNA |
| Extraction protocol |
Genomic DNAs from tumor tissue was extracted from the fresh tissue by manual microdissection, standard proteinase K digestion, using QIAamp DNA Micro Kit #56304 (Qiangen, Germany).
|
| Label |
Cy3
|
| Label protocol |
Same amounts (1.5㎍) of patient DNA and gender-matched reference DNA were digested. The digested DNAs were labeled by random priming with Cy3-dUTP (reference DNA) and Cy5-dUTP (patient DNA) using Agilent Labeling KIT.
|
| |
|
| Hybridization protocol |
Differentially labeled patient and reference DNAs were combined and hybridized to Agilent Human Genome CGH 244A microarrays at 65℃ for 40 hr. Four washing steps were completed with Agilent Oligo CGH washes: Wash Buffer 1 at room temperature for 5 min, Wash Buffer 2 at 37℃ for 1 min, an acetonitrile rinse at room temperature for 1 min and a 30 sec wash at room temperature in Agilent’s Stabilization and Drying Solution.
|
| Scan protocol |
Arrays were scanned using an Agilent Technologies Scanner G2505B US22502629 (Agilent Technologies, Inc).
|
| Description |
Human Genomic DNA from Fresh-frozen tissue of bladder cancer
|
| Data processing |
Data were obtained using Agilent Feature Extraction Software and analyzed with Agilent Genomic Workbench 6.0 Software using the statistical algorithms z-score and common aberration detection method 2 (ADM-2) with sensitivity thresholds at 2.5 and 6.0, respectively, and a moving average window of 0.2 Mb.
|
| |
|
| Submission date |
Jan 13, 2021 |
| Last update date |
Jan 12, 2024 |
| Contact name |
HUANG CHEN |
| E-mail(s) |
chenhuang18@126.com
|
| Organization name |
China-Japan Friendship Hospital
|
| Department |
Department of Etiology and Carcinogenesis
|
| Street address |
Yinghuadongjie 2#, Chaoyang District, Beijing
|
| City |
Beijing |
| ZIP/Postal code |
100029 |
| Country |
China |
| |
|
| Platform ID |
GPL8841 |
| Series (1) |
| GSE164743 |
Common chromosomal aberrations detected by array comparative genomic hybridization in bladder cancer |
|
